TB-Profiler result

Run: SRR4034440
Summary

Run ID: SRR4034440

Sample name:

Date: 04-04-2023 06:48:23

Number of reads: 394125

Percentage reads mapped: 99.73

Strain: lineage4.3.2

Drug-resistance: Sensitive

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrB 5184 c.-56_-55insC upstream_gene_variant 0.4
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7889 p.Glu196Asp missense_variant 0.33
gyrA 9084 p.His595Tyr missense_variant 0.4
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490717 c.-66C>G upstream_gene_variant 0.29
mshA 576222 p.Gly292Val missense_variant 0.22
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304571 c.1641G>T synonymous_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471905 n.60G>A non_coding_transcript_exon_variant 0.25
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1474784 n.1127C>T non_coding_transcript_exon_variant 0.29
fabG1 1673256 c.-184A>G upstream_gene_variant 0.33
fabG1 1673412 c.-28G>A upstream_gene_variant 0.29
inhA 1674265 p.Ala22Thr missense_variant 0.14
tlyA 1917943 p.Ala2Thr missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154775 p.Ser446Asn missense_variant 0.29
PPE35 2169210 p.Pro468Leu missense_variant 0.33
Rv1979c 2222681 p.Ala162Ser missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087124 p.Ala102Val missense_variant 0.4
fbiD 3339141 c.24C>T synonymous_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474497 p.Arg164Gln missense_variant 0.22
Rv3236c 3612233 p.Leu295Pro missense_variant 0.29
fbiB 3641616 p.Asp28Asn missense_variant 0.29
fbiB 3642109 p.Val192Ala missense_variant 0.33
alr 3840745 p.Gly226Arg missense_variant 0.29
alr 3841378 p.Thr15Ala missense_variant 0.29
ddn 3987261 p.Thr140Ala missense_variant 0.18
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242869 p.Val1003Ile missense_variant 0.2
embA 4244687 c.1457delA frameshift_variant 0.2
ubiA 4269286 p.Gly183Val missense_variant 0.4
ubiA 4269851 c.-18C>T upstream_gene_variant 0.4
ethR 4327108 c.-441G>A upstream_gene_variant 0.17
whiB6 4338250 p.Ala91Val missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0